Complet list of 1bds hssp file
Complete list of 1bds.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1BDS
THRESHOLD according to: t(L)=(290.15 * L ** -0.562) + 5
REFERENCE Sander C., Schneider R. : Database of homology-derived protein structures. Proteins, 9:56-68 (1991).
CONTACT Maintained at http://www.cmbi.ru.nl/ by Maarten L. Hekkelman
DATE file generated on 2014-03-24
HEADER ANTI-HYPERTENSIVE, ANTI-VIRAL PROTEIN 14-NOV-88 1BDS
COMPND MOL_ID: 1; MOLECULE: BDS-I; CHAIN: A; ENGINEERED: YES
SOURCE MOL_ID: 1; ORGANISM_SCIENTIFIC: ANEMONIA SULCATA; ORGANISM_COMMON: SNA
AUTHOR G.M.CLORE,P.C.DRISCOLL,A.M.GRONENBORN
DBREF 1BDS A 1 43 UNP P11494 BDS1_ANESU 1 43
SEQLENGTH 43
NCHAIN 1 chain(s) in 1BDS data set
NALIGN 6
NOTATION : ID: EMBL/SWISSPROT identifier of the aligned (homologous) protein
NOTATION : STRID: if the 3-D structure of the aligned protein is known, then STRID is the Protein Data Bank identifier as taken
NOTATION : from the database reference or DR-line of the EMBL/SWISSPROT entry
NOTATION : %IDE: percentage of residue identity of the alignment
NOTATION : %SIM (%WSIM): (weighted) similarity of the alignment
NOTATION : IFIR/ILAS: first and last residue of the alignment in the test sequence
NOTATION : JFIR/JLAS: first and last residue of the alignment in the alignend protein
NOTATION : LALI: length of the alignment excluding insertions and deletions
NOTATION : NGAP: number of insertions and deletions in the alignment
NOTATION : LGAP: total length of all insertions and deletions
NOTATION : LSEQ2: length of the entire sequence of the aligned protein
NOTATION : ACCNUM: SwissProt accession number
NOTATION : PROTEIN: one-line description of aligned protein
NOTATION : SeqNo,PDBNo,AA,STRUCTURE,BP1,BP2,ACC: sequential and PDB residue numbers, amino acid (lower case = Cys), secondary
NOTATION : structure, bridge partners, solvent exposure as in DSSP (Kabsch and Sander, Biopolymers 22, 2577-2637(1983)
NOTATION : VAR: sequence variability on a scale of 0-100 as derived from the NALIGN alignments
NOTATION : pair of lower case characters (AvaK) in the alignend sequence bracket a point of insertion in this sequence
NOTATION : dots (....) in the alignend sequence indicate points of deletion in this sequence
NOTATION : SEQUENCE PROFILE: relative frequency of an amino acid type at each position. Asx and Glx are in their
NOTATION : acid/amide form in proportion to their database frequencies
NOTATION : NOCC: number of aligned sequences spanning this position (including the test sequence)
NOTATION : NDEL: number of sequences with a deletion in the test protein at this position
NOTATION : NINS: number of sequences with an insertion in the test protein at this position
NOTATION : ENTROPY: entropy measure of sequence variability at this position
NOTATION : RELENT: relative entropy, i.e. entropy normalized to the range 0-100
NOTATION : WEIGHT: conservation weight
## PROTEINS : identifier and alignment statistics
NR. ID STRID %IDE %WSIM IFIR ILAS JFIR JLAS LALI NGAP LGAP LSEQ2 ACCNUM PROTEIN
1 : BDS1_ANESU 2BDS 1.00 1.00 1 43 1 43 43 0 0 43 P11494 Antihypertensive protein BDS-1 OS=Anemonia sulcata PE=1 SV=1
2 : BDS2_ANESU 0.95 1.00 1 43 1 43 43 0 0 43 P59084 Antihypertensive protein BDS-2 OS=Anemonia sulcata PE=1 SV=1
3 : G0W2H7_BUNGR 0.48 0.60 3 42 1 38 40 1 2 41 G0W2H7 U-AITX-Bg1a protein (Fragment) OS=Bunodosoma granulifera GN=U-AITX-Bg1a PE=2 SV=1
4 : TXAM2_ANTMC 0.46 0.63 4 43 37 77 41 1 1 80 P69930 Peptide toxin Am-2 OS=Antheopsis maculata PE=1 SV=1
5 : G0W2H9_BUNGR 0.45 0.60 1 42 32 71 42 1 2 74 G0W2H9 U-AITX-Bg1c protein OS=Bunodosoma granulifera GN=U-AITX-Bg1c PE=4 SV=1
6 : TXC4_BUNCI 0.43 0.50 3 41 3 40 40 2 3 41 P84919 Neurotoxin BcIV OS=Bunodosoma caissarum PE=1 SV=1
## ALIGNMENTS 1 - 6
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A A 0 0 89 4 50 AA G
2 2 A A - 0 0 22 4 69 AA T
3 3 A P + 0 0 99 6 0 PPP PP
4 4 A a - 0 0 28 7 0 CCCCCC
5 5 A F - 0 0 130 7 85 FFFRWD
6 6 A b - 0 0 11 7 0 CCCCCC
7 7 A S S S+ 0 0 98 6 85 SP.EGH
8 8 A G S S+ 0 0 82 6 35 GG.GQG
9 9 A K - 0 0 85 7 79 KKGKTH
10 10 A P + 0 0 107 7 77 PPKTKT
11 11 A G S S- 0 0 43 7 48 GDTEGG
12 12 A R - 0 0 80 7 110 RRVYVT
13 13 A G - 0 0 0 6 59 GGGGY.
14 14 A D E -A 40 0A 29 6 105 DDIDW.
15 15 A L E -A 39 0A 89 7 86 LLYKYY
16 16 A W E -A 38 0A 38 7 0 WWWWWW
17 17 A I - 0 0 107 7 40 IIFLML
18 18 A L S S+ 0 0 114 7 101 LLAFRn
19 19 A R - 0 0 126 6 104 RRLH.y
20 20 A G S S+ 0 0 51 6 77 GGYG.S
21 21 A T S S- 0 0 102 7 79 TTSGKK
22 22 A c - 0 0 19 7 0 CCCCCC
23 23 A P >> - 0 0 33 7 0 PPPPPP
24 24 A G T 34 S+ 0 0 84 7 66 GGGNSK
25 25 A G T 34 S+ 0 0 78 7 25 GGGNGG
26 26 A Y T <4 S- 0 0 164 7 0 YYYYYY
27 27 A G < + 0 0 56 7 0 GGGGGG
28 28 A Y + 0 0 32 7 0 YYYYYY
29 29 A T + 0 0 118 7 30 TTTNTT
30 30 A S + 0 0 34 7 78 SSGYGG
31 31 A N E -B 40 0A 51 7 62 NNHKNR
32 32 A b E -B 39 0A 14 7 0 CCCCCC
33 33 A Y E +B 38 0A 97 7 83 YYGFYR
34 34 A K E > -B 37 0A 95 7 99 KKHMHY
35 35 A W T 3 S+ 0 0 201 7 59 WWFKFL
36 36 A P T 3 S+ 0 0 75 7 79 PPMPMV
37 37 A N E < - B 0 34A 52 7 49 NNGgGG
38 38 A I E -AB 16 33A 0 7 76 IIVvRS
39 39 A a E -AB 15 32A 2 7 0 CCCCCC
40 40 A c E -AB 14 31A 0 7 0 CCCCCC
41 41 A Y + 0 0 10 7 0 YYYYYY
42 42 A P 0 0 72 6 0 PPPPP
43 43 A H 0 0 118 4 50 HH Q
## SEQUENCE PROFILE AND ENTROPY
SeqNo PDBNo V L I M F W Y G A P S T C H R K Q E N D NOCC NDEL NINS ENTROPY RELENT WEIGHT
1 1 A 0 0 0 0 0 0 0 25 75 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0.562 18 0.50
2 2 A 0 0 0 0 0 0 0 0 75 0 0 25 0 0 0 0 0 0 0 0 4 0 0 0.562 18 0.31
3 3 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
4 4 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
5 5 A 0 0 0 0 57 14 0 0 0 0 0 0 0 0 14 0 0 0 0 14 7 0 0 1.154 38 0.15
6 6 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 7 1 0 0.000 0 1.00
7 7 A 0 0 0 0 0 0 0 17 0 17 33 0 0 17 0 0 0 17 0 0 6 0 0 1.561 52 0.15
8 8 A 0 0 0 0 0 0 0 83 0 0 0 0 0 0 0 0 17 0 0 0 6 0 0 0.451 15 0.65
9 9 A 0 0 0 0 0 0 0 14 0 0 0 14 0 14 0 57 0 0 0 0 7 0 0 1.154 38 0.21
10 10 A 0 0 0 0 0 0 0 0 0 43 0 29 0 0 0 29 0 0 0 0 7 0 0 1.079 36 0.22
11 11 A 0 0 0 0 0 0 0 57 0 0 0 14 0 0 0 0 0 14 0 14 7 0 0 1.154 38 0.51
12 12 A 29 0 0 0 0 0 14 0 0 0 0 14 0 0 43 0 0 0 0 0 7 1 0 1.277 42 -0.11
13 13 A 0 0 0 0 0 0 17 83 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0.451 15 0.40
14 14 A 0 0 17 0 0 17 0 0 0 0 0 0 0 0 0 0 0 0 0 67 6 0 0 0.868 28 -0.06
15 15 A 0 43 0 0 0 0 43 0 0 0 0 0 0 0 0 14 0 0 0 0 7 0 0 1.004 33 0.14
16 16 A 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
17 17 A 0 29 43 14 14 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 1.277 42 0.59
18 18 A 0 43 0 0 14 0 0 0 14 0 0 0 0 0 14 0 0 0 14 0 7 1 1 1.475 49 -0.02
19 19 A 0 17 0 0 0 0 17 0 0 0 0 0 0 17 50 0 0 0 0 0 6 0 0 1.242 41 -0.05
20 20 A 0 0 0 0 0 0 17 67 0 0 17 0 0 0 0 0 0 0 0 0 6 0 0 0.868 28 0.23
21 21 A 0 0 0 0 0 0 0 14 0 0 14 43 0 0 0 29 0 0 0 0 7 0 0 1.277 42 0.21
22 22 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
23 23 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
24 24 A 0 0 0 0 0 0 0 57 0 0 14 0 0 0 0 14 0 0 14 0 7 0 0 1.154 38 0.33
25 25 A 0 0 0 0 0 0 0 86 0 0 0 0 0 0 0 0 0 0 14 0 7 0 0 0.410 13 0.74
26 26 A 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
27 27 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
28 28 A 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
29 29 A 0 0 0 0 0 0 0 0 0 0 0 86 0 0 0 0 0 0 14 0 7 0 0 0.410 13 0.69
30 30 A 0 0 0 0 0 0 14 43 0 0 43 0 0 0 0 0 0 0 0 0 7 0 0 1.004 33 0.21
31 31 A 0 0 0 0 0 0 0 0 0 0 0 0 0 14 14 14 0 0 57 0 7 0 0 1.154 38 0.37
32 32 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
33 33 A 0 0 0 0 14 0 57 14 0 0 0 0 0 0 14 0 0 0 0 0 7 0 0 1.154 38 0.16
34 34 A 0 0 0 14 0 0 14 0 0 0 0 0 0 29 0 43 0 0 0 0 7 0 0 1.277 42 0.01
35 35 A 0 14 0 0 29 43 0 0 0 0 0 0 0 0 0 14 0 0 0 0 7 0 0 1.277 42 0.41
36 36 A 14 0 0 29 0 0 0 0 0 57 0 0 0 0 0 0 0 0 0 0 7 0 0 0.956 31 0.21
37 37 A 0 0 0 0 0 0 0 57 0 0 0 0 0 0 0 0 0 0 43 0 7 0 1 0.683 22 0.51
38 38 A 29 0 43 0 0 0 0 0 0 0 14 0 0 0 14 0 0 0 0 0 7 0 0 1.277 42 0.24
39 39 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
40 40 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
41 41 A 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
42 42 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
43 43 A 0 0 0 0 0 0 0 0 0 0 0 0 0 75 0 0 25 0 0 0 4 0 0 0.562 18 0.50
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
4 35 71 1 gAv
6 15 17 1 nYy
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